💡 This enables powerful insights into tissue organization, microenvironments & biological processes — while still being compatible with cell-based methods when needed.

GRIDGENE takes a cell-free approach, using transcript density to define biologically relevant tissue regions such as: ✨ Tissue interfaces ✨ Phenotype-enriched compartments ✨ Gene signature–defined zones

🚀 Happy to share our new preprint introducing GRIDGENE — a transcript density–based approach for spatial transcriptomics! biorxiv.org/content/10.1101/… #SpatialTranscriptomics #CancerResearch #Bioinformatics

Instead, PENGUIN preserves critical signal intensity variations, cuts down on noise, and boosts accuracy in tasks like cell segmentation & phenotyping. 🧬💻

📊 What PENGUIN PENGUIN Offers: PENGUIN (Percentile Normalization GUI Image deNoising) stands out with a streamlined, no-fuss approach for preprocessing multiplex imaging data. Unlike other tools, it doesn’t require: Manual annotation Complex machine learning models

🚀 New Tool Alert! 🚀 PENGUIN 🐧is finally published in @CSB_Journal : PENGUIN is a rapid, efficient, and user-friendly tool for denoising and normalizing multiplexed spatial proteomics images! 🔬✨ 🔗sciencedirect.com/science/ar…

By sequentially applying MALDI-MSI and IMC on the same tissue section, we can map the cellular makeup of the tissue microenvironment and simultaneously uncover the metabolic phenotypes of individual cells.

Imaging mass #cytometry (SABR was our previous pipeline but led to some loss of real signal) onlinelibrary.wiley.com/doi/…

🚀 We just developed a new tool for pre-processing #multiplex #imaging data! 🐧 PENGUIN is an easy, straightforward, and highly effective solution to handle noise while preserving real signals. biorxiv.org/content/10.1101/…

In a study spearheaded by @s_vanoost and led by J Bovée's group, we took a deep dive into #chordoma immunity. We unearth intriguing immune responses despite the low mutation burden of chordomas, a rare and complex cancer. #CancerResearch #Immunotherapy biorxiv.org/content/10.1101/…

Great work by @Joana_BrasNunes & @MEIjsselsteijn as we delve into the world of single-cell immune and metabolic profiling using imaging #CyTOF and MALDI-MSI. #Cancer #Immunology #metabolism biorxiv.org/content/10.1101/…

Today was our group's summer activity. Our survival skills were put to the test during an Expedition Robinson challenge. After science and academia, everything else seems easy ;)

The @LUMC_Leiden crew @FORTRESSMEETING. Wonderful meeting to advance #sarcoma research and therapy. See you in 2024!

Great presentation by Debora Meijer, a PhD from the groups of Judith Bovee and our lab @LUMC_Leiden and @mkuijjer on the discovery of #Immunotherapy targets in #osteosarcoma @FORTRESSMEETING

5/6 Last, we showed that #ICB induces profound infiltration of activated, cytotoxic, and proliferating γδ T cells in MMR-d colon cancers with antigen presentation defects, highlighting γδ T cells as effectors of immune checkpoint blockade in this context.🦸

4/6 We demonstrated that γδ T cells from MMR-d colon cancers show preferential reactivity towards HLA class I-negative cancer cell lines and organoids. This reactivity was mainly contained within the PD-1+ Vδ1 and Vδ3 T cells, and partly dependent on NKG2D/NKG2D-L interactions.

3/6 We examined tumor-infiltrating #γδTcells in MMR-d colon cancers by #scRNAseq and #ImagingMassCytometry, and observed that the Vδ1 and Vδ3 T cell subsets display hallmarks of cytotoxic activity and frequently show intraepithelial localization in tumors.🔬